BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0541.0094.p (363 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value A9U6K9.1 A9U6K9_PHYPA Predicted protein (Fragment) 314 9e-84 A8W114.1 A8W114_9BACI Response regulator receiver protein 208 8e-52 B7DQ24.1 B7DQ24_9BACL Diguanylate cyclase 162 4e-38 C1PUV7.1 C1PUV7_ALIAC Diguanylate cyclase (GGDEF) domain-contain... 157 2e-36 Q47GW9.1 Q47GW9_DECAR Diguanylate cyclase with PAS/PAC sensor 136 4e-30 >A9U6K9.1 A9U6K9_PHYPA Predicted protein (Fragment) Length = 866 Score = 314 bits (804), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 152/259 (58%), Positives = 193/259 (74%), Gaps = 4/259 (1%) Query: 92 MTLMMPIMISLVYFDQRLLNALGAFSLLFYAAIYLGLXXXXXXXKKPLLEFLMVECVFIV 151 M L++P++IS+VYFD++LL G+ ++L Y IYL +KP+ EF+ ++ VFIV Sbjct: 1 MALLLPVLISVVYFDRKLLYGFGSLTILLYCLIYL---TERSLYQKPIQEFIQIQSVFIV 57 Query: 152 FVVMAQAVIIRAREVREHLEQLTKSEQELMVERAISDKLLKIDALTGLYNHKTFHEYLVS 211 +++ +++R +E HLE + KSEQ+L+VER ISDKLLKIDALTGLYNHK FHEYL + Sbjct: 58 SIMIGHTILVRVKEFMRHLESVMKSEQQLLVERTISDKLLKIDALTGLYNHKAFHEYLEA 117 Query: 212 LLEQCESNGLRLQLALFDIDNFKRVNDTYGHWVGDLVLKEVAAKVGGLIGLNDFAARYGG 271 LLEQCE L LQLA+ DIDNFK+VND YGH VGD+VLKEVA+KV + NDFAARYGG Sbjct: 118 LLEQCEKYQLPLQLAIIDIDNFKKVNDNYGHRVGDVVLKEVASKVMSTMTPNDFAARYGG 177 Query: 272 EEFAVIFTDKSIHEAYAAAEELRLKIAAMEHPYAGGKPITVSIGLCDYQLGDGKEKLFRK 331 EEFA+I DK++ EA AE+LR +IA E P+ KP+TVSIGLC++Q GD KE LFRK Sbjct: 178 EEFAIIMADKTLEEAERMAEQLRERIARTELPHT-VKPVTVSIGLCNFQQGDDKESLFRK 236 Query: 332 TDHALYAAKHSGKNAVVTA 350 D ALY AK +GKN VVTA Sbjct: 237 ADMALYQAKRTGKNKVVTA 255 >A8W114.1 A8W114_9BACI Response regulator receiver protein Length = 368 Score = 208 bits (529), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 132/356 (37%), Positives = 197/356 (55%), Gaps = 24/356 (6%) Query: 4 YWIIVFCMLVAQLLYVLSNHVIEVRSILLPSKGHLFIGCNLMIVIAMATAE--MWLRSTS 61 YW ++F +VA++ + V I+ PS+ F L +++ A+ + L +T Sbjct: 24 YWYLIFIAIVAEIF------ALTVTLIMSPSE---FWDDVLPVLVYPTVAQVILLLITTV 74 Query: 62 LYHKQA------VVVCGFAVSYLMYFVLEPFVDGAQMTLMMPIMISLVYFDQRLLNALGA 115 +Y K+ ++V G +++++ + GA + L++P+MIS+++F++ ++ Sbjct: 75 IYKKKITENEYILMVVGSLLAFIL-IAANTSLAGAPLILLLPMMISILFFNKNVV----I 129 Query: 116 FSLLFYAAIYLGLXXXXXXXKKPL--LEFLMVECVFIVFVVMAQAVIIRAREVREHLEQL 173 FS L YL + L EF+ +F ++ AV R+ EV E L + Sbjct: 130 FSYLVNVIAYLVTIALFPDLGEYLRIYEFIAYIYIFSAGFIILLAVQERSDEVIELLRKK 189 Query: 174 TKSEQELMVERAISDKLLKIDALTGLYNHKTFHEYLVSLLEQCESNGLRLQLALFDIDNF 233 EQELMV I ++L K+DA TGLYNHKTF EYL L EQ ++ R QLA+ DIDNF Sbjct: 190 VDQEQELMVRNTIMERLSKVDAPTGLYNHKTFQEYLAYLFEQSSTSSYRFQLAMLDIDNF 249 Query: 234 KRVNDTYGHWVGDLVLKEVAAKVGGLIGLNDFAARYGGEEFAVIFTDKSIHEAYAAAEEL 293 K+VNDTYGH VGD +L+ +A + + ND A+RYGGEEF V+FTD S A E + Sbjct: 250 KQVNDTYGHAVGDKILERIAGIIQANVDANDIASRYGGEEFGVLFTDCSFETALHVVETI 309 Query: 294 RLKIAAMEHPYAGGKPITVSIGLCDYQLGDGKEKLFRKTDHALYAAKHSGKNAVVT 349 RL+I + H GG+ +TVSIGL +Y + LF K D LY AK +GKN + T Sbjct: 310 RLEIERLPHEEMGGRNVTVSIGLVEYTDEEQAPVLFEKADTLLYLAKKNGKNRIET 365 >B7DQ24.1 B7DQ24_9BACL Diguanylate cyclase Length = 376 Score = 162 bits (411), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 106/331 (32%), Positives = 173/331 (52%), Gaps = 8/331 (2%) Query: 28 RSILLPSKGHLFIGCNLMIVIAMATAEMWLRSTSLYHKQAVVVCGFAVSYLMYFVLEPFV 87 R+ LLP ++ +++V AE +R + ++V G ++ L+ P Sbjct: 46 RAHLLPLALRAWMFAPILLVSIEGAAEWAVRKYPQSRENVLIVAGTLLA-LVAIAAYPDA 104 Query: 88 DGAQMTLMMPIMISLVYFDQRLLNALGAFSLLFYAAIYLGLXXXXXXXKKPL----LEFL 143 + + +L++P++ S+++ R+ A ++ F A + L L L L Sbjct: 105 EALRASLLLPVVTSILHL--RVEKVWLAGAVAFAAELALTLMQMSGGASAEAILQSLGHL 162 Query: 144 MVECVFIVFVVMAQAVIIR-AREVREHLEQLTKSEQELMVERAISDKLLKIDALTGLYNH 202 + + +++ A +++R + + L +++ EL V + +S+K K DALTGLYN Sbjct: 163 ALWSLVLLWTTSACHIVLRFGLRIWDELRVQARAQTELWVRQILSEKEAKTDALTGLYNR 222 Query: 203 KTFHEYLVSLLEQCESNGLRLQLALFDIDNFKRVNDTYGHWVGDLVLKEVAAKVGGLIGL 262 K+F EYL L+ E L LA+ DIDNFK++ND YGH VGD +L+ A + + Sbjct: 223 KSFDEYLDFALQISEGTNTPLHLAVIDIDNFKQINDRYGHLVGDEILRRTAQAIQQHLAA 282 Query: 263 NDFAARYGGEEFAVIFTDKSIHEAYAAAEELRLKIAAMEHPYAGGKPITVSIGLCDYQLG 322 DF ARYGGEEFAVI + S +A E++R IA + H G TVSIGL ++ G Sbjct: 283 GDFLARYGGEEFAVIIPEVSHEQAVQNMEKIREYIANVHHLELDGNRATVSIGLSTHRPG 342 Query: 323 DGKEKLFRKTDHALYAAKHSGKNAVVTASAA 353 + +++LF + D LY AK +GKN +V +A Sbjct: 343 ETRDELFERADQCLYRAKQTGKNKIVAWESA 373 >C1PUV7.1 C1PUV7_ALIAC Diguanylate cyclase (GGDEF) domain-containing protein Length = 402 Score = 157 bits (397), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 84/215 (39%), Positives = 126/215 (58%), Gaps = 1/215 (0%) Query: 140 LEFLMVECVFIVFVVMAQAVIIR-AREVREHLEQLTKSEQELMVERAISDKLLKIDALTG 198 L L + + +++ A +++R + + L T+++ EL V + +S+K K DALTG Sbjct: 185 LGHLALWSLILLWTTAASHIVLRFGLRIWDELRVQTRAQTELWVRQILSEKEAKTDALTG 244 Query: 199 LYNHKTFHEYLVSLLEQCESNGLRLQLALFDIDNFKRVNDTYGHWVGDLVLKEVAAKVGG 258 LYN K+F EYL L+ + L LA+ DIDNFK++ND YGH VGD +L+ A + Sbjct: 245 LYNRKSFDEYLDFALQISDGTNTPLHLAVIDIDNFKQINDQYGHLVGDEILRRTAQAIQQ 304 Query: 259 LIGLNDFAARYGGEEFAVIFTDKSIHEAYAAAEELRLKIAAMEHPYAGGKPITVSIGLCD 318 + DF ARYGGEEFAVI + + +A E++R IA + H G TVSIGL Sbjct: 305 HLAAGDFLARYGGEEFAVIIPEVTHEQAVQNMEKIREYIANVHHVELDGNRATVSIGLST 364 Query: 319 YQLGDGKEKLFRKTDHALYAAKHSGKNAVVTASAA 353 ++ G+ +++LF + D LY AK +GKN +V +A Sbjct: 365 HRPGETRDELFERADQCLYRAKQTGKNKIVAWESA 399 >Q47GW9.1 Q47GW9_DECAR Diguanylate cyclase with PAS/PAC sensor Length = 469 Score = 136 bits (342), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 79/193 (40%), Positives = 109/193 (56%), Gaps = 2/193 (1%) Query: 160 IIRAREVREHLEQLTKSEQELMVERAISDKLLKIDALTGLYNHKTFHEYLVSLLEQCESN 219 +I A E + + + ++E+ L L + D+LTGL+N + HE L + LE+ Sbjct: 273 VIGAIETLQDVTERRRAEEALRESEERYRSLSQTDSLTGLFNSRHLHEQLPNELERAGRY 332 Query: 220 GLRLQLALFDIDNFKRVNDTYGHWVGDLVLKEVAAKVGGLIGLNDFAARYGGEEFAVIFT 279 G L L + D DNFK VND YGH GD VL+ +A +G + +DFA RYGGEEF V+ Sbjct: 333 GRPLSLLVLDCDNFKCVNDRYGHLGGDKVLQSLATAIGHCLRRSDFAFRYGGEEFVVLLP 392 Query: 280 DKSIHEAYAAAEELRLKIAAMEHPYAGGKPI--TVSIGLCDYQLGDGKEKLFRKTDHALY 337 + +I A A AE LR + A++E P G I TVSIG+ + G+ + L R+ D A Y Sbjct: 393 ETAIQAALAIAERLRSQFASIETPAPSGDAICCTVSIGVAECVPGESEASLVRRADEACY 452 Query: 338 AAKHSGKNAVVTA 350 AK GKN VV A Sbjct: 453 MAKARGKNCVVMA 465 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.326 0.140 0.411 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,948,147,079 Number of extensions: 75187413 Number of successful extensions: 287512 Number of sequences better than 1.0e-05: 13818 Number of HSP's gapped: 274949 Number of HSP's successfully gapped: 13840 Length of query: 363 Length of database: 3,060,696,203 Length adjustment: 137 Effective length of query: 226 Effective length of database: 1,770,017,148 Effective search space: 400023875448 Effective search space used: 400023875448 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 132 (55.5 bits)